Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0004995

Physical Location & Seq

Genomic Coordinates Forward (+)

60328920 .. 60330032

Gene Structure 1113 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0434400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGGTGATGATGATGCGCTGCAGCAGCGAAGGAGGTACGCCTTTTCGTCATTTTACTCCTGCCGTCGACAATTACTTGGCCTTGTTACACTCTCAAACCTCTGAACCAATCGATTCCAGAACCAACCAAGTAGCCCAGCTTGTTAGAGAGAGAGACTCACCACCCGAAATCGCTAATGTTGTAGATGCCCGGAAGGTCTACGATGAAATGCTTCAAAGCCGTCCTCTGCCCTCGATTATCCGTTTCCCTCAAATCTTGGGTCAACTCGTGAAATTGAAGCATTATTGGGAAGCCATCACTTTGTACAAACAAATGCGTCTGATGCGAATTAGTCCTGATGTTTATTCTCTAAGTATAATCATGAACTGCTATTCTCGTTTGAACCGAATTGGGTTCAGTTTATCTGTCTTGGCTCAAGTCTTCAAGTTTGGTCTCGAACCAAATGTCACCACCTTCACCACCCTAATCAACGGCTTTCTTATTCAGAATAAAGTAGCTGAAGCAGCAGCAACTTTCAGCAAAATGGTGGAGGCAGGTATTCAGCCCAATGTGGTCGCGTTCGGCACATTGATAAAGGGCTTGTGCTTCAAGGGTAACAATGTTGCAGCTATTCAATTACTCAGAAAGATGGAACAAGGACCTTGTAAGCCTGATGTAGTCGTCTATAACACCATCATTGACAGTCTCTTAAAGGATGCACTAATTATGGACGCGTTGAACCTTTTCTCAGAAATGGTAAGAAGGGGTATCACCCCAACCGTCATTACTTACAACTCTTTGATTAATGAAACTTGCAAAGTAGGTAGGTGGAAAGAAGCTACAAGACTGTTGAATGAAATGGTGAGTCAAAATATCTTTCCAGATGTGCGCACCTTCAATGTCTTGGTTGATGCACTTTGTAAGGAAGGGATGGTGGAGCAAGCAAAAAGTGTGATTCAGATGATGATTCAAAGAGATAGAATCACTTACAATTCGCTTATGAATGTTTACTGTTTGCGAGGAGAAATGGACAAGGCAAAAGAAGTCTTTGATCTGATGATTAGCAAGGCCTTCATGGTTGATGTTCGCAGTTATAACATATTGATAAACGTGTTGAAGGATATTGACACTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005509 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0043167 GO:0043169 GO:0044424 GO:0044464 GO:0046872

KEGG Pathways

Metabolic & Signaling

ko04626 map04626

Pfam Domains

Protein Families

EF-hand_1 EF-hand_5 EF-hand_7 EF-hand_8

Protein Analysis

370

Amino Acids

41.99

Weight (kDa)

8.86

Isoelectric Point (pI)

32.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	137 - 192	1.4e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	144 - 176	2.5e-06	PPR repeat
PPR_2	PF13041	147 - 195	1.1e-13	PPR repeat family
PPR_3	PF13812	173 - 227	2e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	179 - 211	4.1e-09	PPR repeat
PPR_2	PF13041	182 - 220	1e-07	PPR repeat family
PPR_1	PF12854	215 - 246	1.5e-07	PPR repeat
PPR_2	PF13041	217 - 266	1.3e-16	PPR repeat family
PPR_long	PF17177	233 - 354	3.9e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	241 - 299	1.1e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	248 - 281	5.9e-12	PPR repeat
PPR_2	PF13041	252 - 301	1.6e-17	PPR repeat family
PPR	PF01535	255 - 285	3.5e-06	PPR repeat
PPR_1	PF12854	284 - 315	8.2e-09	PPR repeat
PPR	PF01535	291 - 318	6.8e-06	PPR repeat
PPR_1	PF12854	315 - 346	1.2e-08	PPR repeat
PPR_2	PF13041	319 - 365	1.1e-11	PPR repeat family
PPR	PF01535	321 - 349	6.1e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0004995)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G26470 AT4G26470 AT4G26470
fragaria_vesca	FvH4_3g41720 FvH4_3g41720 FvH4_3g41720 FvH4_3g41720
malus_domestica	MD03G1041500.v1.1 MD11G1042400.v1.1
prunus_persica	Prupe.6G033600_v2.0.a1 Prupe.6G033600_v2.0.a1
pyrus_communis	pycom03g03220 pycom11g03650
rosa_chinensis	RchiOBHm_Chr5g0074811
rosa_laevigata	RLG00000036507
rosa_multiflora	Rmu_co8378831.1_g000001 Rmu_sc0000909.1_g000003 Rmu_sc0005365.1_g000009
rosa_roxburghii	Rroxscaffold_1G00006760
rosa_rugosa	Rorug05G0434000 Rorug05G0434100 Rorug05G0434100 Rorug05G0434200 Rorug05G0434300 Rorug05G0434400
rosa_samantha	Rh5AG491900 Rh5BG513300 Rh5CG537000 Rh5DG525400
rosa_wichuraiana	Rw5G045570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1074
Acc16I	TGCGCA	1 cut(s)	869
Acc36I	ACCTGC	1 cut(s)	524
AccI	GTMKAC	2 cut(s)	66, 198
AccII	CGCG	2 cut(s)	557, 713
AcuI	CTGAAG	1 cut(s)	519
AfaI	GTAC	2 cut(s)	37, 305
AflIII	ACRYGT	2 cut(s)	711, 1089
AluBI	AGCT	4 cut(s)	139, 497, 608, 818
AluI	AGCT	4 cut(s)	139, 497, 608, 818
Alw26I	GTCTC	3 cut(s)	147, 437, 689
AoxI	GGCC	2 cut(s)	78, 1047
ApeKI	GCWGC	6 cut(s)	18, 21, 24, 503, 506, 605
ArsI	GACNNNNNNTTYG	4 cut(s)	244, 276, 429, 461
AseI	ATTAAT	1 cut(s)	783
Asp700I	GAANNNNTTC	2 cut(s)	210, 722
AspLEI	GCGC	2 cut(s)	18, 870
AspS9I	GGNCC	1 cut(s)	638
AsuC2I	CCSGG	1 cut(s)	190
AsuHPI	GGTGA	6 cut(s)	16, 150, 439, 448, 742, 853
AvaII	GGWCC	1 cut(s)	638
BauI	CACGAG	1 cut(s)	266
BbsI	GAAGAC	1 cut(s)	412
BbvI	GCAGC	6 cut(s)	5, 33, 36, 515, 518, 617
BccI	CCATC	4 cut(s)	302, 622, 680, 904
BceAI	ACGGC	3 cut(s)	47, 204, 487
BcnI	CCSGG	1 cut(s)	190
BcoDI	GTCTC	3 cut(s)	147, 437, 689
BfmI	CTRYAG	1 cut(s)	19
BfuAI	ACCTGC	1 cut(s)	524
BisI	GCNGC	6 cut(s)	19, 22, 25, 504, 507, 606
BlsI	GCNGC	6 cut(s)	20, 23, 26, 505, 508, 607
Bme1390I	CCNGG	1 cut(s)	190
Bme18I	GGWCC	1 cut(s)	638
BmgT120I	GGNCC	1 cut(s)	638
BmrFI	CCNGG	1 cut(s)	190
BmsI	GCATC	5 cut(s)	3, 175, 312, 685, 880
BpiI	GAAGAC	1 cut(s)	412
BplI	GAGNNNNNCTC	2 cut(s)	140, 172
BpuEI	CTTGAG	1 cut(s)	399
BpuMI	CCSGG	1 cut(s)	190
Bsa29I	ATCGAT	1 cut(s)	111
BsaI	GGTCTC	1 cut(s)	437
BseCI	ATCGAT	1 cut(s)	111
BseGI	GGATG	2 cut(s)	700, 915
BseMII	CTCAG	2 cut(s)	634, 741
BseRI	GAGGAG	1 cut(s)	1014
BseXI	GCAGC	6 cut(s)	5, 33, 36, 515, 518, 617
BseYI	CCCAGC	1 cut(s)	135
Bsh1236I	CGCG	2 cut(s)	557, 713
BshFI	GGCC	2 cut(s)	80, 1049
BshVI	ATCGAT	1 cut(s)	111
BsiSI	CCGG	1 cut(s)	190
BsmAI	GTCTC	3 cut(s)	147, 437, 689
BsnI	GGCC	2 cut(s)	80, 1049
Bso31I	GGTCTC	1 cut(s)	437
Bsp1407I	TGTACA	1 cut(s)	303
Bsp143I	GATC	1 cut(s)	1030
BspANI	GGCC	2 cut(s)	80, 1049
BspCNI	CTCAG	2 cut(s)	633, 740
BspDI	ATCGAT	1 cut(s)	111
BspFNI	CGCG	2 cut(s)	557, 713
BspHI	TCATGA	1 cut(s)	360
BspMAI	CTGCAG	1 cut(s)	23
BspMI	ACCTGC	1 cut(s)	524
BspTNI	GGTCTC	1 cut(s)	437
BsrGI	TGTACA	1 cut(s)	303
BssMI	GATC	1 cut(s)	1030
BssSI	CACGAG	1 cut(s)	266
Bst2BI	CACGAG	1 cut(s)	266
Bst4CI	ACNGT	4 cut(s)	683, 760, 828, 992
BstAUI	TGTACA	1 cut(s)	303
BstC8I	GCNNGC	1 cut(s)	921
BstDEI	CTNAG	4 cut(s)	350, 620, 727, 1110
BstF5I	GGATG	2 cut(s)	700, 915
BstFNI	CGCG	2 cut(s)	557, 713
BstHHI	GCGC	2 cut(s)	18, 870
BstKTI	GATC	1 cut(s)	1033
BstMAI	GTCTC	3 cut(s)	147, 437, 689
BstMBI	GATC	1 cut(s)	1030
BstMWI	GCNNNNNNNGC	3 cut(s)	24, 322, 503
BstSCI	CCNGG	1 cut(s)	188
BstSFI	CTRYAG	1 cut(s)	19
BstUI	CGCG	2 cut(s)	557, 713
BstV1I	GCAGC	6 cut(s)	5, 33, 36, 515, 518, 617
BstV2I	GAAGAC	1 cut(s)	412
Bsu15I	ATCGAT	1 cut(s)	111
BsuRI	GGCC	2 cut(s)	80, 1049
BsuTUI	ATCGAT	1 cut(s)	111
BtsCI	GGATG	2 cut(s)	700, 915
BveI	ACCTGC	1 cut(s)	524
Cac8I	GCNNGC	1 cut(s)	921
CciI	TCATGA	1 cut(s)	360
CfoI	GCGC	2 cut(s)	18, 870
Cfr13I	GGNCC	1 cut(s)	638
ClaI	ATCGAT	1 cut(s)	111
CseI	GACGC	2 cut(s)	305, 719
Csp6I	GTAC	2 cut(s)	36, 304
CviAII	CATG	2 cut(s)	361, 1054
CviQI	GTAC	2 cut(s)	36, 304
DdeI	CTNAG	4 cut(s)	350, 620, 727, 1110
DpnI	GATC	1 cut(s)	1032
DpnII	GATC	1 cut(s)	1030
Eco147I	AGGCCT	1 cut(s)	1049
Eco31I	GGTCTC	1 cut(s)	437
Eco47I	GGWCC	1 cut(s)	638
Eco57I	CTGAAG	1 cut(s)	519
EcoO109I	RGGNCCY	1 cut(s)	638
FaeI	CATG	2 cut(s)	364, 1057
FaiI	YATR	8 cut(s)	356, 362, 666, 707, 980, 1055, 1074, 1079
FatI	CATG	2 cut(s)	360, 1053
FblI	GTMKAC	2 cut(s)	66, 198
Fnu4HI	GCNGC	6 cut(s)	19, 22, 25, 504, 507, 606
FokI	GGATG	2 cut(s)	707, 922
Fsp4HI	GCNGC	6 cut(s)	19, 22, 25, 504, 507, 606
FspAI	RTGCGCAY	1 cut(s)	869
FspI	TGCGCA	1 cut(s)	869
GlaI	GCGC	2 cut(s)	17, 869
GluI	GCNGC	6 cut(s)	19, 22, 25, 504, 507, 606
GsaI	CCCAGC	1 cut(s)	139
HaeIII	GGCC	2 cut(s)	80, 1049
HapII	CCGG	1 cut(s)	190
HgaI	GACGC	2 cut(s)	305, 719
HhaI	GCGC	2 cut(s)	18, 870
Hin1II	CATG	2 cut(s)	364, 1057
Hin6I	GCGC	2 cut(s)	16, 868
HinP1I	GCGC	2 cut(s)	16, 868
HincII	GTYRAC	2 cut(s)	67, 263
HindII	GTYRAC	2 cut(s)	67, 263
HinfI	GANTC	6 cut(s)	113, 155, 844, 934, 946, 960
HpaII	CCGG	1 cut(s)	190
HphI	GGTGA	6 cut(s)	16, 150, 439, 448, 742, 853
Hpy166II	GTNNAC	4 cut(s)	67, 199, 263, 988
Hpy188I	TCNGA	7 cut(s)	103, 321, 486, 623, 730, 939, 1035
Hpy188III	TCNNGA	6 cut(s)	117, 268, 335, 361, 434, 860
Hpy8I	GTNNAC	4 cut(s)	67, 199, 263, 988
Hpy99I	CGWCG	1 cut(s)	68
HpyAV	CCTTC	8 cut(s)	23, 187, 463, 735, 883, 899, 1060, 1090
HpyCH4III	ACNGT	4 cut(s)	683, 760, 828, 992
HpyCH4IV	ACGT	1 cut(s)	1089
HpyCH4V	TGCA	5 cut(s)	21, 605, 698, 795, 893
HpyF10VI	GCNNNNNNNGC	3 cut(s)	24, 322, 503
HpyF3I	CTNAG	4 cut(s)	350, 620, 727, 1110
HpySE526I	ACGT	1 cut(s)	1089
Hsp92II	CATG	2 cut(s)	364, 1057
HspAI	GCGC	2 cut(s)	16, 868
Kzo9I	GATC	1 cut(s)	1030
LmnI	GCTCC	1 cut(s)	916
LpnPI	CCDG	8 cut(s)	72, 130, 149, 203, 348, 519, 663, 873
Lsp1109I	GCAGC	6 cut(s)	5, 33, 36, 515, 518, 617
LweI	GCATC	5 cut(s)	3, 175, 312, 685, 880
MaeII	ACGT	1 cut(s)	1089
MaeIII	GTNAC	3 cut(s)	84, 445, 593
MalI	GATC	1 cut(s)	1032
MboI	GATC	1 cut(s)	1030
MboII	GAAGA	1 cut(s)	412
MluCI	AATT	7 cut(s)	70, 272, 327, 387, 614, 702, 970
MluI	ACGCGT	1 cut(s)	711
MlyI	GAGTC	2 cut(s)	149, 853
MnlI	CCTC	7 cut(s)	26, 109, 234, 241, 258, 523, 992
MroXI	GAANNNNTTC	2 cut(s)	210, 722
MseI	TTAA	2 cut(s)	689, 783
MspI	CCGG	1 cut(s)	190
MspR9I	CCNGG	1 cut(s)	190
MvnI	CGCG	2 cut(s)	557, 713
MwoI	GCNNNNNNNGC	3 cut(s)	24, 322, 503
NciI	CCSGG	1 cut(s)	190
NdeII	GATC	1 cut(s)	1030
NlaIII	CATG	2 cut(s)	364, 1057
NmuCI	GTSAC	1 cut(s)	445
NsbI	TGCGCA	1 cut(s)	869
PagI	TCATGA	1 cut(s)	360
PceI	AGGCCT	1 cut(s)	1049
PcsI	WCGNNNNNNNCGW	1 cut(s)	382
PdmI	GAANNNNTTC	2 cut(s)	210, 722
PfeI	GAWTC	4 cut(s)	113, 934, 946, 960
PkrI	GCNGC	6 cut(s)	20, 23, 26, 505, 508, 607
PleI	GAGTC	2 cut(s)	149, 852
PpsI	GAGTC	2 cut(s)	149, 852
PpuMI	RGGWCCY	1 cut(s)	638
PshBI	ATTAAT	1 cut(s)	783
PsiI	TTATAA	1 cut(s)	1074
Psp5II	RGGWCCY	1 cut(s)	638
PspFI	CCCAGC	1 cut(s)	135
PspPI	GGNCC	1 cut(s)	638
PspPPI	RGGWCCY	1 cut(s)	638
PstI	CTGCAG	1 cut(s)	23
RsaI	GTAC	2 cut(s)	37, 305
RsaNI	GTAC	2 cut(s)	36, 304
SalI	GTCGAC	1 cut(s)	65
SaqAI	TTAA	2 cut(s)	689, 783
SatI	GCNGC	6 cut(s)	19, 22, 25, 504, 507, 606
Sau3AI	GATC	1 cut(s)	1030
Sau96I	GGNCC	1 cut(s)	638
SchI	GAGTC	2 cut(s)	149, 853
ScrFI	CCNGG	1 cut(s)	190
SfaNI	GCATC	5 cut(s)	3, 175, 312, 685, 880
SfcI	CTRYAG	1 cut(s)	19
SinI	GGWCC	1 cut(s)	638
SmlI	CTYRAG	1 cut(s)	414
SmoI	CTYRAG	1 cut(s)	414
Sse9I	AATT	7 cut(s)	70, 272, 327, 387, 614, 702, 970
SseBI	AGGCCT	1 cut(s)	1049
StuI	AGGCCT	1 cut(s)	1049
StyD4I	CCNGG	1 cut(s)	188
TaaI	ACNGT	4 cut(s)	683, 760, 828, 992
TaiI	ACGT	1 cut(s)	1092
TaqI	TCGA	4 cut(s)	66, 111, 233, 435
TasI	AATT	7 cut(s)	70, 272, 327, 387, 614, 702, 970
TatI	WGTACW	1 cut(s)	303
TfiI	GAWTC	4 cut(s)	113, 934, 946, 960
Tru1I	TTAA	2 cut(s)	689, 783
Tru9I	TTAA	2 cut(s)	689, 783
TseFI	GTSAC	1 cut(s)	445
TseI	GCWGC	6 cut(s)	18, 21, 24, 503, 506, 605
Tsp45I	GTSAC	1 cut(s)	445
TspDTI	ATGAA	6 cut(s)	219, 377, 801, 849, 995, 1042
TspGWI	ACGGA	1 cut(s)	230
VpaK11BI	GGWCC	1 cut(s)	638
VspI	ATTAAT	1 cut(s)	783
XmiI	GTMKAC	2 cut(s)	66, 198
XmnI	GAANNNNTTC	2 cut(s)	210, 722

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.